Sequence
atgc intronic sequence ATGC exonic sequencegtatcagattatatcttgcctcttgatctgatttccaatgtgacgaatttgcatgatctaaaataatataattacaatacaatgattgaaattgtcacaacatgtccattaataaggtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G21690.1 (Glycine max), 3'ss of exon 11
gtatcagattatatcttgcctcttgatctgatttccaatgtgacgaatttgcatgatctaaaataatataattacaatacaatgattgaaattgtcacaacatgtccattaataaggtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
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---------------------------------------------------------ttaaatcttttagattattatttatt---cgcattttttatgatttatctttt--ttatgtagtgatttttgtc----accaatatgtttgcttttgatgtat-----aaacagGGATGTCAAGCTTGAGTACAAGACTTTGAAGGAAAAGATGAAGGAGTACAACAAAAAAGAGGCAAAATTTTATGGAAATATGTTCAACAAACTGCACAAG
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA16G10730.2 (Glycine max), 3'ss of exon 11
gtatcagattatatcttgcctcttgatctgatttccaatgtgacgaatttgcatgatctaaaataatataattacaatacaatgattgaaattgtcacaacatgtccattaataaggtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
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--------------------------------------------------------tttaaaac--ttcaagtattatttatt---tgaattttagatgatttatt-atttgtgtc-tcgt-gatatttattaccgatacatttg---ctttcaatatat----aaaccagGGATGTCAAGCTTGAGTACGTGACTCTGAAGGAAAAGATGAAGGAGTACAACAAGAAAGAGGCAAAATTTTATGGAAATATGTTCAACAAACTGCACAAG
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G25230.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatcagattatatcttgcctcttgatctgatttccaatgtgacgaatttgcatgatctaaaataatataattacaatacaatgattgaaattgtcacaacatgtccattaataaggtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
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------gtttgtctcttactctttaa-ctcttatttaatgttac--atttg---gcttttgtatcttttaat--ccacagcatgat------------aatgtcttctttat-----------atactaacagaagactaaattt--gctattt-tatttgctaatgatagGGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAAGT---
upper sequence: Vv00s0958g00020.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G25230.2 (Arabidopsis thaliana), 3'ss of exon 11
gtatcagattatatcttgcctcttgatctgatttccaatgtgacgaatttgcatgatctaaaataatataattacaatacaatgattgaaattgtcacaacatgtccattaataaggtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
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------gtttgtctcttactctttaa-ctcttatttaatgttac--atttg---gcttttgtatcttttaat--ccacagcatgat------------aatgtcttctttat-----------atactaacagaagactaaattt--gctattt-tatttgctaatgatagGGAAGTGAAGCTAGAGCAGAAAAGGTTGAAGGAGAAAATGAAGGAATTCAATAAAAAGGAAGCCAAATTTTATGGAAACATGTTTGCGAAACTAA----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
tattaat putative branch site (score: 2)
tttgttt CT-rich tract
aaagaattataactat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcagattatatcttgcctcttgatctgatttccaatgtgacgaatttgcatgatctaaaataatataattacaatacaatgattgaaattgtcacaacatgtccattaataaggtagtagatcccaactgaggaaagaattataactattaatgtttgtttaaaacagGGATGTAAAGCTGGAGTATAGAACTTTAAAGGAAAAAATGAAGGAGTACAATAAGAAAGAGGCCAAATTCTATGGCAACATGTTTGCAAGGATGAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG